Dietary Supplementation With Leucine or in Combination With Arginine Decreases Body Fat Weight and Alters Gut Microbiota Composition in Finishing Pigs
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Quality control
- Retracted paper
- Contamination issues suspected
- Batch effect issues suspected
- Uncontrolled confounding suspected
- Results are suspect (various reasons)
- Tags applied
Experiment 1
Subjects
- Location of subjects
- China
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Sus scrofa domesticus
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Colon Hindgut,Large bowel,Posterior intestine,Colon,colon
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Diet measurement Diet measurement,diet measurement
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Combination of Leu_Glu (1.00% Leucine + 1.00% Glutamic acid), Leu_Arg ( 1.00% Leucine + 1.00% Arginine) and BD (basal diet)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Leu (Leucine) group
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Pigs fed a basal diet supplemented with 1.00% Leucine + 1.37% alanine (Leu group)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 36
- Group 1 sample size Number of subjects in the case (exposed) group
- 12
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V3-V4
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Illumina
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- Kruskall-Wallis
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.05
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- No
Signature 1
Source: Figure 8A and 8B
Description: Taxonomic differences of colonic microbiota among the four groups. Comparison of relative abundance at the phylum (A) and genus (B) levels between the four groups.
Abundance in Group 1: increased abundance in Leu (Leucine) group
NCBI | Quality Control | Links |
---|---|---|
Actinomycetota | ||
Collinsella | ||
Coriobacteriaceae | ||
Slackia |
Revision editor(s): Tosin
Experiment 2
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Combination of Leu (Leucine), Leu_Glu (1.00% Leucine + 1.00% Glutamic acid) and Leu_Arg (1.00% Leucine + 1.00% Arginine)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- BD (Basal diet)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- The pigs in the control group were fed a basal diet supplemented with 2.05% alanine (isonitrogenous control, BD group)
Lab analysis
Statistical Analysis
Signature 1
Source: Figure 8B
Description: Taxonomic differences of colonic microbiota among the four groups. Comparison of relative abundance at the genus (B) level between the four groups.
Abundance in Group 1: increased abundance in BD (Basal diet)
NCBI | Quality Control | Links |
---|---|---|
Anaerosporobacter | ||
Flavobacterium | ||
Ruminiclostridium_6Ruminiclostridium_6 | ||
Clostridiales vadinBB60 groupClostridiales vadinBB60 group |
Revision editor(s): Tosin
Experiment 3
Subjects
Lab analysis
Statistical Analysis
- Statistical test
- LEfSe
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
Signature 1
Source: Figure 8C
Description: Linear discriminant analysis (LDA) scores for the enriched microbiota among the four groups
Abundance in Group 1: increased abundance in BD (Basal diet)
NCBI | Quality Control | Links |
---|---|---|
Flavobacterium | ||
Ruminiclostridium_6Ruminiclostridium_6 | ||
Clostridiales vadinBB60 groupClostridiales vadinBB60 group | ||
Anaerosporobacter |
Revision editor(s): Tosin
Experiment 4
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Combination of Leu_Glu (1.00% Leucine + 1.00% Glutamic acid), Leu_Arg ( 1.00% Leucine + 1.00% Arginine) and BD (basal diet)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Leu (Leucine) group
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Pigs fed a basal diet supplemented with 1.00% Leucine + 1.37% alanine (Leu group)
Lab analysis
Statistical Analysis
Signature 1
Source: Figure 8C
Description: Linear discriminant analysis (LDA) scores for the enriched microbiota among the four groups
Abundance in Group 1: increased abundance in Leu (Leucine) group
NCBI | Quality Control | Links |
---|---|---|
Actinomycetota | ||
Acidimicrobiia | ||
Coriobacteriales | ||
Coriobacteriaceae | ||
Collinsella | ||
Slackia |
Revision editor(s): Tosin
Experiment 5
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Combination of Leu (Leucine), Leu_Arg ( 1.00% Leucine + 1.00% Arginine) and BD (basal diet) groups
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Leu_ Glu (1.00% Leucine + 1.00% Glutamic acid) group
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Pigs fed a basal diet supplemented with 1.00% Leucine + 1.00% glutamic acid (Leu_Glu group)
Lab analysis
Statistical Analysis
Signature 1
Source: Figure 8C
Description: Linear discriminant analysis (LDA) scores for the enriched microbiota among four groups
Abundance in Group 1: increased abundance in Leu_ Glu (1.00% Leucine + 1.00% Glutamic acid) group
NCBI | Quality Control | Links |
---|---|---|
Catenisphaera | ||
Moraxellaceae | ||
Oscillospira | ||
Pseudomonadales | ||
Selenomonas | ||
Ruminococcaceae UCG-008Ruminococcaceae UCG-008 |
Revision editor(s): Tosin
Experiment 6
Subjects
Lab analysis
Statistical Analysis
- Statistical test
- Kruskall-Wallis
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- Not specified
Signature 1
Source: Figure 8B
Description: Taxonomic differences of colonic microbiota among the four groups. Comparison of relative abundance at the genus (B) level between the four groups.
Abundance in Group 1: increased abundance in Leu_ Glu (1.00% Leucine + 1.00% Glutamic acid) group
NCBI | Quality Control | Links |
---|---|---|
Catenisphaera | ||
Oscillospira | ||
Selenomonas | ||
Ruminococcaceae UCG-008Ruminococcaceae UCG-008 |
Revision editor(s): Tosin